Rroxscaffold_3G00233730

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000316
Physical Location & Seq
Reverse (-)
19975543 .. 19981293
5751 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00233730.1

Sequence Viewer

Length: 1572 bp
ATGAGGAACAAGAAGAAGAGGGAGGTGGTGGAGGTAGAGGAAGAGAAAGATTCAGAGGATTGGTGCTTCGAATGCAAAGATGGTGGAGATCTTATTATTTGCGACTACAAGGATTGCATTAAAGTTTACCATCCGGGATGCGTGGGGAAAAAGAAAACCTTCATGAACTCTGGAAGGCACTGGACTTGTCGTAGACATTCTTGTTCAGTGTGCTCTAGTACCCCAAGGTTTTATTGCCTTTGCTGTCCAAATGCATCATTATGTAGAGATTGCTTCGGTGTTTCTGAGTTTACGCTGCTAAAAGGGAATAATGGCTTGTGCAAGAGTTGTTTAAAGCTTGTTCTGCTTGCAGAAGAAAACTCAGAATATGGTTTAGAAGGAGAGAAAATAGACTTCAAGGATCGTGATACTTTTGAGTGCCTGTTTAAAGAGTGTTGGGAAATCCTAAAGGAACAAGAAGGTTTCACTTTGGATGATGTCTATTCCGCATATGCCACATTAAAGGGAAAAAATCATAATTGCAGATTTGATTCAGTAAATAATGGTGATAGTGACGAAAGTAGAGACCTGACAACATCAGACGGTGACACTAGTGCTATAGAGTTTCAGAAGACAGTAGGAAAAAAGAAGAGATTTCAGCCAATGGAATTTATAGGATGGGGTTCCAAACCTCTCATTGAGTTCCTAAGATCCATTGGGAAGGATACAACCAAGAAGTTATCCCGGTTTGAAGTGGAGTCTATCATCTCTTATTACATCAAGGATAATGACCTCCCAAAACAGAAGAAAATGATTCAATGTGATAATAGTCTGTATTCTATCTTCAAACAGAAATCCATCAATATGGCAAAATTATATCAACTTCTGGAGGAACATTTTGCAGAAGACATTATGGTAATAGAGGATAGTGGAAGTCAGGATGAAGATATAATCAGATTGGAAGATAAGAACAACGGTACAAAGAGCAAGAAGAGAAGAGTGAGCTCAGATGTAATAACAACTGATGAAAACAAAGCTCCTAGTATCCATAAAAGCTGTTTTGCATCTATTATTGCTGAGAATATGAAGTTTGTTTACGTAAGAAGGAGCTTACTAGAAGAGTTATTGAAGGAGCCCGATCATTCAGAAAGCAAGATACTAGGGAGTTTCGTGAGAGTGAAAAATGACCCTCAAGACTACCTTCAGAGAAATAGTCACCAGCTTTCACAAGTTAAAGGCATGAAGAAAATCACAGCAACTAATGGAGCATACTTTGAAATTCTCCTGCAAGTTTCTCATTTTACAAGAGATATTCCCATTTCTTTGCTATCAGATTCTGACTTCACTCAGGAAGAATGTGAAGATTTGCGTCAACACATGGCTGAAGGCTTGCTAAAGAAACCTACAGTTGTTGCGCTTCAAGAAAAGGCGAGAGTTCTGCATGAAGACATAACTAAGCATGTACTTGAATATTTGGAGCAAAGAGAGCGACTAAAGAAACCATCTGAACAGGAACGACTGTTAAAGCAGTTACCAGAGGTCATACCAGAGGTTATAGACATCGAATCGAATTCTCTGGACTCTGGTGATTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Plus-3 SWIB

Protein Analysis

523

Amino Acids

60.24

Weight (kDa)

5.73

Isoelectric Point (pI)

49.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PHD_NSD PF22908 21 - 66 9.3e-06 Histone-lysine N-methyltransferase NSD-like, PHD zinc finger
SWIB PF02201 222 - 293 2.3e-11 SWIB/MDM2 domain
Plus-3 PF03126 355 - 453 9.7e-18 Plus-3 domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000316)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G33300
fragaria_vesca FvH4_3g26472 FvH4_5g30650 FvH4_5g30650 FvH4_5g30650 FvH4_5g35240 FvH4_5g35240 FvH4_5g35240 FvH4_5g35240 FvH4_5g35240 FvH4_5g35250 FvH4_5g35250 FvH4_5g35250 FvH4_5g35250 FvH4_5g35250 FvH4_5g35250 FvH4_5g35250 FvH4_5g35250
malus_domestica MD08G1198100.v1.1 MD08G1222000.v1.1 MD15G1385400.v1.1 MD15G1440800.v1.1
prunus_persica Prupe.1G532100_v2.0.a1 Prupe.1G559800_v2.0.a1 Prupe.1G559800_v2.0.a1 Prupe.1G559800_v2.0.a1 Prupe.1G559800_v2.0.a1
pyrus_communis pycom08g17030 pycom08g17040 pycom08g19270 pycom08g19280 pycom15g34550 pycom15g36860 pycom15g38860
rosa_chinensis RchiOBHm_Chr6g0258571 RchiOBHm_Chr6g0258581 RchiOBHm_Chr6g0258621 RchiOBHm_Chr7g0225511 RchiOBHm_Chr7g0230561 RchiOBHm_Chr7g0230571 RchiOBHm_Chr7g0236371 RchiOBHm_Chr7g0236391
rosa_laevigata RLG00000001080 RLG00000001810 RLG00000014605
rosa_multiflora Rmu_co8399019.1_g000001 Rmu_sc0002222.1_g000016 Rmu_sc0002449.1_g000032 Rmu_sc0003720.1_g000005 Rmu_sc0005578.1_g000003 Rmu_sc0011035.1_g000002 Rmu_sc0012681.1_g000001 Rmu_sc0023362.1_g000001 Rmu_sc0023858.1_g000001 Rmu_sc0029314.1_g000001
rosa_roxburghii Rroxscaffold_178G00437500 Rroxscaffold_178G00437540 Rroxscaffold_3G00225100 Rroxscaffold_3G00225110 Rroxscaffold_3G00225140 Rroxscaffold_3G00225170 Rroxscaffold_3G00225190 Rroxscaffold_3G00229880 Rroxscaffold_3G00233730 Rroxscaffold_7G00205760 Rroxscaffold_7G00205780 Rroxscaffold_7G00205820 Rroxscaffold_7G00205860
rosa_rugosa Rorug03G0221800 Rorug03G0270500 Rorug05G0313300 Rorug05G0582400 Rorug05G0582500 Rorug07G0230200.1 Rorug07G0230300 Rorug07G0230400 Rorug07G0295100 Rorug07G0296900
rosa_samantha Rh6AG098800 Rh6AG098900 Rh6AG184000 Rh6BG090700 Rh6BG090900 Rh6CG087500 Rh6CG087600 Rh6DG081800 Rh6DG082000 Rh7AG373100 Rh7AG412900 Rh7AG413000 Rh7AG451100 Rh7AG451200 Rh7BG364900 Rh7BG422800 Rh7BG422900 Rh7CG391400 Rh7CG431300 Rh7CG431400 Rh7CG469300 Rh7CG470800 Rh7CG471300 Rh7CG471400 Rh7DG367900 Rh7DG368000 Rh7DG375800 Rh7DG408800 Rh7DG440500 Rh7DG440600
rosa_wichuraiana Rw0G007810 Rw6G008570 Rw6G008580 Rw7G031720 Rw7G034090 Rw7G037500 Rw7G037510 Rw7G037580

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 193
AciI CCGC 1 cut(s) 486
AclWI GGATC 2 cut(s) 408, 684
AcsI RAATTY 3 cut(s) 647, 1257, 1549
AcuI CTGAAG 2 cut(s) 1166, 1383
AfaI GTAC 3 cut(s) 220, 958, 1443
AgsI TTSAA 8 cut(s) 397, 731, 797, 826, 1108, 1256, 1400, 1448
AhlI ACTAGT 1 cut(s) 590
AluBI AGCT 6 cut(s) 337, 984, 1016, 1035, 1089, 1201
AluI AGCT 6 cut(s) 337, 984, 1016, 1035, 1089, 1201
Alw21I GWGCWC 2 cut(s) 215, 986
Alw26I GTCTC 1 cut(s) 558
AlwI GGATC 2 cut(s) 408, 684
AlwNI CAGNNNCTG 1 cut(s) 1316
ApeKI GCWGC 1 cut(s) 295
ApoI RAATTY 3 cut(s) 647, 1257, 1549
Asp700I GAANNNNTTC 1 cut(s) 158
AspLEI GCGC 1 cut(s) 1396
AsuC2I CCSGG 2 cut(s) 135, 724
AsuHPI GGTGA 3 cut(s) 557, 596, 1187
AsuII TTCGAA 1 cut(s) 69
BanII GRGCYC 2 cut(s) 986, 1116
BarI GAAGNNNNNNTAC 4 cut(s) 806, 838, 1058, 1090
BbsI GAAGAC 3 cut(s) 617, 891, 1431
Bbv12I GWGCWC 2 cut(s) 215, 986
BbvI GCAGC 1 cut(s) 282
BccI CCATC 5 cut(s) 74, 138, 651, 845, 1489
BcgI CGANNNNNNTGC 2 cut(s) 1399, 1433
BciVI GTATCC 2 cut(s) 697, 1034
BcnI CCSGG 2 cut(s) 135, 724
BcoDI GTCTC 1 cut(s) 558
BcuI ACTAGT 1 cut(s) 590
BfaI CTAG 5 cut(s) 216, 591, 1020, 1094, 1139
BfmI CTRYAG 2 cut(s) 597, 1383
BfuI GTATCC 2 cut(s) 697, 1034
BglII AGATCT 1 cut(s) 88
BisI GCNGC 1 cut(s) 296
BlsI GCNGC 1 cut(s) 297
Bme1390I CCNGG 2 cut(s) 135, 724
BmiI GGNNCC 2 cut(s) 664, 1113
BmrFI CCNGG 2 cut(s) 135, 724
BmsI GCATC 3 cut(s) 128, 263, 1052
BpiI GAAGAC 3 cut(s) 617, 891, 1431
BpmI CTGGAG 1 cut(s) 887
Bpu14I TTCGAA 1 cut(s) 69
BpuEI CTTGAG 1 cut(s) 1155
BpuMI CCSGG 2 cut(s) 135, 724
BsaAI YACGTR 1 cut(s) 1078
BsaI GGTCTC 1 cut(s) 558
BsaJI CCNNGG 1 cut(s) 224
Bse1I ACTGG 1 cut(s) 185
BseDI CCNNGG 1 cut(s) 224
BseGI GGATG 5 cut(s) 130, 143, 478, 662, 925
BseMII CTCAG 5 cut(s) 276, 375, 999, 1047, 1340
BseNI ACTGG 1 cut(s) 185
BseXI GCAGC 1 cut(s) 282
BsiHKAI GWGCWC 2 cut(s) 215, 986
BsiSI CCGG 2 cut(s) 134, 724
BsmAI GTCTC 1 cut(s) 558
BsmI GAATGC 1 cut(s) 77
Bso31I GGTCTC 1 cut(s) 558
Bsp119I TTCGAA 1 cut(s) 69
Bsp1286I GDGCHC 3 cut(s) 215, 986, 1116
Bsp143I GATC 4 cut(s) 88, 400, 689, 1117
BspACI CCGC 1 cut(s) 486
BspCNI CTCAG 5 cut(s) 277, 374, 998, 1048, 1339
BspHI TCATGA 1 cut(s) 162
BspLI GGNNCC 2 cut(s) 664, 1113
BspPI GGATC 2 cut(s) 408, 684
BspT104I TTCGAA 1 cut(s) 69
BspTNI GGTCTC 1 cut(s) 558
BsrI ACTGG 1 cut(s) 185
BssECI CCNNGG 1 cut(s) 224
BssMI GATC 4 cut(s) 88, 400, 689, 1117
BssT1I CCWWGG 1 cut(s) 224
Bst4CI ACNGT 5 cut(s) 584, 616, 956, 1387, 1500
Bst6I CTCTTC 6 cut(s) 11, 36, 623, 965, 970, 1092
BstBAI YACGTR 1 cut(s) 1078
BstBI TTCGAA 1 cut(s) 69
BstC8I GCNNGC 2 cut(s) 348, 1370
BstDEI CTNAG 7 cut(s) 285, 361, 686, 985, 1056, 1326, 1434
BstF5I GGATG 5 cut(s) 130, 143, 478, 662, 925
BstHHI GCGC 1 cut(s) 1396
BstKTI GATC 4 cut(s) 91, 403, 692, 1120
BstMAI GTCTC 1 cut(s) 558
BstMBI GATC 4 cut(s) 88, 400, 689, 1117
BstMWI GCNNNNNNNGC 3 cut(s) 72, 343, 1465
BstNSI RCATGY 1 cut(s) 1442
BstSCI CCNGG 2 cut(s) 133, 722
BstSFI CTRYAG 2 cut(s) 597, 1383
BstSNI TACGTA 1 cut(s) 1078
BstV1I GCAGC 1 cut(s) 282
BstV2I GAAGAC 3 cut(s) 617, 891, 1431
BstX2I RGATCY 2 cut(s) 88, 689
BstXI CCANNNNNNTGG 1 cut(s) 844
BstYI RGATCY 2 cut(s) 88, 689
BsuI GTATCC 2 cut(s) 697, 1034
BtsCI GGATG 5 cut(s) 130, 143, 478, 662, 925
BtsIMutI CAGTG 2 cut(s) 178, 213
Cac8I GCNNGC 2 cut(s) 348, 1370
CaiI CAGNNNCTG 1 cut(s) 1316
CciI TCATGA 1 cut(s) 162
CfoI GCGC 1 cut(s) 1396
CseI GACGC 1 cut(s) 1337
Csp6I GTAC 3 cut(s) 219, 957, 1442
CspCI CAANNNNNGTGG 2 cut(s) 64, 99
CviAII CATG 5 cut(s) 163, 1219, 1357, 1421, 1439
CviQI GTAC 3 cut(s) 219, 957, 1442
DdeI CTNAG 7 cut(s) 285, 361, 686, 985, 1056, 1326, 1434
DpnI GATC 4 cut(s) 90, 402, 691, 1119
DpnII GATC 4 cut(s) 88, 400, 689, 1117
DraI TTTAAA 2 cut(s) 333, 427
Eam1104I CTCTTC 6 cut(s) 11, 36, 623, 965, 970, 1092
EarI CTCTTC 6 cut(s) 11, 36, 623, 965, 970, 1092
Ecl136II GAGCTC 1 cut(s) 984
Eco105I TACGTA 1 cut(s) 1078
Eco130I CCWWGG 1 cut(s) 224
Eco24I GRGCYC 2 cut(s) 986, 1116
Eco31I GGTCTC 1 cut(s) 558
Eco53kI GAGCTC 1 cut(s) 984
Eco57I CTGAAG 2 cut(s) 1166, 1383
EcoICRI GAGCTC 1 cut(s) 984
EcoRI GAATTC 1 cut(s) 1549
EcoT14I CCWWGG 1 cut(s) 224
EcoT22I ATGCAT 1 cut(s) 256
EcoT38I GRGCYC 2 cut(s) 986, 1116
ErhI CCWWGG 1 cut(s) 224
FaeI CATG 5 cut(s) 166, 1222, 1360, 1424, 1442
FalI AAGNNNNNCTT 4 cut(s) 143, 175, 1164, 1196
FatI CATG 5 cut(s) 162, 1218, 1356, 1420, 1438
FauNDI CATATG 1 cut(s) 490
FblI GTMKAC 1 cut(s) 193
Fnu4HI GCNGC 1 cut(s) 296
FokI GGATG 5 cut(s) 117, 150, 485, 669, 932
FriOI GRGCYC 2 cut(s) 986, 1116
Fsp4HI GCNGC 1 cut(s) 296
FspBI CTAG 5 cut(s) 216, 591, 1020, 1094, 1139
GlaI GCGC 1 cut(s) 1395
GluI GCNGC 1 cut(s) 296
GsuI CTGGAG 1 cut(s) 887
HapII CCGG 2 cut(s) 134, 724
HgaI GACGC 1 cut(s) 1337
HhaI GCGC 1 cut(s) 1396
Hin1II CATG 5 cut(s) 166, 1222, 1360, 1424, 1442
Hin6I GCGC 1 cut(s) 1394
HinP1I GCGC 1 cut(s) 1394
HincII GTYRAC 1 cut(s) 1352
HindII GTYRAC 1 cut(s) 1352
HindIII AAGCTT 1 cut(s) 335
HinfI GANTC 7 cut(s) 50, 530, 737, 793, 1313, 1544, 1559
HpaII CCGG 2 cut(s) 134, 724
HphI GGTGA 3 cut(s) 557, 596, 1187
Hpy166II GTNNAC 5 cut(s) 127, 194, 291, 1075, 1352
Hpy8I GTNNAC 5 cut(s) 127, 194, 291, 1075, 1352
HpyAV CCTTC 9 cut(s) 168, 169, 371, 452, 694, 1077, 1102, 1190, 1358
HpyCH4III ACNGT 5 cut(s) 584, 616, 956, 1387, 1500
HpyCH4IV ACGT 1 cut(s) 1077
HpyF10VI GCNNNNNNNGC 3 cut(s) 72, 343, 1465
HpyF3I CTNAG 7 cut(s) 285, 361, 686, 985, 1056, 1326, 1434
HpySE526I ACGT 1 cut(s) 1077
Hsp92II CATG 5 cut(s) 166, 1222, 1360, 1424, 1442
HspAI GCGC 1 cut(s) 1394
Kzo9I GATC 4 cut(s) 88, 400, 689, 1117
LmnI GCTCC 5 cut(s) 1021, 1086, 1111, 1244, 1456
Lsp1109I GCAGC 1 cut(s) 282
LweI GCATC 3 cut(s) 128, 263, 1052
MaeI CTAG 5 cut(s) 216, 591, 1020, 1094, 1139
MaeII ACGT 1 cut(s) 1077
MaeIII GTNAC 4 cut(s) 551, 584, 1193, 1509
MalI GATC 4 cut(s) 90, 402, 691, 1119
MboI GATC 4 cut(s) 88, 400, 689, 1117
MflI RGATCY 2 cut(s) 88, 689
MhlI GDGCHC 3 cut(s) 215, 986, 1116
MluCI AATT 5 cut(s) 517, 647, 851, 1257, 1549
MlyI GAGTC 2 cut(s) 746, 1553
Mph1103I ATGCAT 1 cut(s) 256
MroXI GAANNNNTTC 1 cut(s) 158
MseI TTAA 6 cut(s) 120, 332, 426, 500, 1212, 1502
MslI CAYNNNNRTG 2 cut(s) 259, 842
MspI CCGG 2 cut(s) 134, 724
MspR9I CCNGG 2 cut(s) 135, 724
Mva1269I GAATGC 1 cut(s) 77
MwoI GCNNNNNNNGC 3 cut(s) 72, 343, 1465
NciI CCSGG 2 cut(s) 135, 724
NdeI CATATG 1 cut(s) 490
NdeII GATC 4 cut(s) 88, 400, 689, 1117
NlaIII CATG 5 cut(s) 166, 1222, 1360, 1424, 1442
NlaIV GGNNCC 2 cut(s) 664, 1113
NmuCI GTSAC 3 cut(s) 551, 584, 1193
NsiI ATGCAT 1 cut(s) 256
NspI RCATGY 1 cut(s) 1442
NspV TTCGAA 1 cut(s) 69
PagI TCATGA 1 cut(s) 162
PctI GAATGC 1 cut(s) 77
PdmI GAANNNNTTC 1 cut(s) 158
PfeI GAWTC 5 cut(s) 50, 530, 793, 1313, 1544
PfoI TCCNGGA 1 cut(s) 133
PkrI GCNGC 1 cut(s) 297
PleI GAGTC 2 cut(s) 745, 1553
PpsI GAGTC 2 cut(s) 745, 1553
Ppu21I YACGTR 1 cut(s) 1078
Psp124BI GAGCTC 1 cut(s) 986
PspN4I GGNNCC 2 cut(s) 664, 1113
PstNI CAGNNNCTG 1 cut(s) 1316
PsuI RGATCY 2 cut(s) 88, 689
RsaI GTAC 3 cut(s) 220, 958, 1443
RsaNI GTAC 3 cut(s) 219, 957, 1442
RseI CAYNNNNRTG 2 cut(s) 259, 842
SacI GAGCTC 1 cut(s) 986
SaqAI TTAA 6 cut(s) 120, 332, 426, 500, 1212, 1502
SatI GCNGC 1 cut(s) 296
Sau3AI GATC 4 cut(s) 88, 400, 689, 1117
SchI GAGTC 2 cut(s) 746, 1553
ScrFI CCNGG 2 cut(s) 135, 724
SduI GDGCHC 3 cut(s) 215, 986, 1116
SfaNI GCATC 3 cut(s) 128, 263, 1052
SfcI CTRYAG 2 cut(s) 597, 1383
SfuI TTCGAA 1 cut(s) 69
SmiMI CAYNNNNRTG 2 cut(s) 259, 842
SmlI CTYRAG 1 cut(s) 1170
SmoI CTYRAG 1 cut(s) 1170
SnaBI TACGTA 1 cut(s) 1078
SpeI ACTAGT 1 cut(s) 590
Sse9I AATT 5 cut(s) 517, 647, 851, 1257, 1549
SsiI CCGC 1 cut(s) 486
SspI AATATT 1 cut(s) 1451
SspMI CTAG 5 cut(s) 216, 591, 1020, 1094, 1139
SstI GAGCTC 1 cut(s) 986
StyD4I CCNGG 2 cut(s) 133, 722
StyI CCWWGG 1 cut(s) 224
TaaI ACNGT 5 cut(s) 584, 616, 956, 1387, 1500
TaiI ACGT 1 cut(s) 1080
TaqI TCGA 3 cut(s) 69, 1542, 1547
TasI AATT 5 cut(s) 517, 647, 851, 1257, 1549
TatI WGTACW 1 cut(s) 1441
TfiI GAWTC 5 cut(s) 50, 530, 793, 1313, 1544
Tru1I TTAA 6 cut(s) 120, 332, 426, 500, 1212, 1502
Tru9I TTAA 6 cut(s) 120, 332, 426, 500, 1212, 1502
TscAI CASTG 2 cut(s) 185, 213
TseFI GTSAC 3 cut(s) 551, 584, 1193
TseI GCWGC 1 cut(s) 295
Tsp45I GTSAC 3 cut(s) 551, 584, 1193
TspDTI ATGAA 7 cut(s) 151, 179, 936, 1020, 1079, 1235, 1437
TspRI CASTG 2 cut(s) 185, 213
XapI RAATTY 3 cut(s) 647, 1257, 1549
XceI RCATGY 1 cut(s) 1442
XmiI GTMKAC 1 cut(s) 193
XmnI GAANNNNTTC 1 cut(s) 158
XspI CTAG 5 cut(s) 216, 591, 1020, 1094, 1139
Zsp2I ATGCAT 1 cut(s) 256
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.